Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 104 of 182
Found at i:31302725 original size:54 final size:55
Alignment explanation
Indices: 31302665--31302945 Score: 267
Period size: 54 Copynumber: 5.2 Consensus size: 55
31302655 GGTATAACAG
* * * *
31302665 TCATTTTACCTTAT-GGGGGTACTTT-GGTCATTTTACCCATCGGGGGTATTTTGA
1 TCATTTTACCCTATCGAGGGTA-TTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * * * *
31302719 TTATTTTACCC-ATC-AGTGGTATTTCGGTCATTTTACACATCAAGAGTATTTCAA
1 TCATTTTACCCTATCGAG-GGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * *
31302773 TCATTTTACCC-GTCGAGGGTATTTTGGTTATTTTACCCATCGAGGGTATTTCGA
1 TCATTTTACCCTATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * *
31302827 TCATTTTATCC-ATCGAAGGTATTTCGATCATTTTACCCATCGAGGGTATTTC-A
1 TCATTTTACCCTATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * ** *
31302880 GTCATTTTATCC-ATCGGGGGGTATTTCAATCATTTTACCCATCAAGGGTATTTC-A
1 -TCATTTTACCCTATC-GAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
31302935 GTCA-TTTACCC
1 -TCATTTTACCC
31302946 ATGAAATCCA
Statistics
Matches: 193, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
53 7 0.04
54 145 0.75
55 41 0.21
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (55 bp):
TCATTTTACCCTATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
Found at i:31302793 original size:81 final size:79
Alignment explanation
Indices: 31302692--31302947 Score: 311
Period size: 81 Copynumber: 3.2 Consensus size: 79
31302682 GGTACTTTGG
* *
31302692 TCATTTTACCCATCGGGGGTATTTTGATTATTTTACCCATC-AGTGGTATTTCGGTCATTTTACA
1 TCATTTTACCCATCGAGGGTATTTTGATTATTTTACCCATCGAG-GGTATTTCGATCATTTTAC-
31302756 CATCAAGAGTATTTCAA
64 CATCAAG-GTATTTCAA
* *
31302773 TCATTTTACCCGTCGAGGGTATTTTGGTTATTTTACCCATCGAGGGTATTTCGATCATTTTATCC
1 TCATTTTACCCATCGAGGGTATTTTGATTATTTTACCCATCGAGGGTATTTCGATCATTTTA-CC
*
31302838 ATCGAAGGTATTTCGA
65 ATC-AAGGTATTTCAA
* * * * *
31302854 TCATTTTACCCATCGAGGGTA-TTTCAGTCATTTTATCCATCGGGGGGTATTTCAATCATTTTAC
1 TCATTTTACCCATCGAGGGTATTTTGA-TTATTTTACCCATC-GAGGGTATTTCGATCATTTTA-
*
31302918 CCATCAAGGGTATTTCAG
63 CCATCAA-GGTATTTCAA
31302936 TCA-TTTACCCAT
1 TCATTTTACCCAT
31302948 GAAATCCAGG
Statistics
Matches: 154, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
80 3 0.02
81 110 0.71
82 41 0.27
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (79 bp):
TCATTTTACCCATCGAGGGTATTTTGATTATTTTACCCATCGAGGGTATTTCGATCATTTTACCA
TCAAGGTATTTCAA
Found at i:31308955 original size:17 final size:18
Alignment explanation
Indices: 31308922--31308958 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31308912 TGTCACTATG
31308922 TATTTTGAAATTAAAAAA
1 TATTTTGAAATTAAAAAA
31308940 TATTTT-AAATGTAAAAAA
1 TATTTTGAAAT-TAAAAAA
31308958 T
1 T
31308959 GTGATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TATTTTGAAATTAAAAAA
Found at i:31316088 original size:20 final size:19
Alignment explanation
Indices: 31316049--31316115 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
31316039 CAACACAATG
*
31316049 AAAATAAAATAAAATAAAC
1 AAAATAAAATAAAAGAAAC
*
31316068 AAAATAACAATAAAAGCAAC
1 AAAATAA-AATAAAAGAAAC
* *
31316088 AAAACTTAAAA-AAATGAAAG
1 AAAA--TAAAATAAAAGAAAC
31316108 AAAATAAA
1 AAAATAAA
31316116 GAACTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.10
19 7 0.17
20 24 0.60
21 2 0.05
22 3 0.08
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAATAAAATAAAAGAAAC
Found at i:31323624 original size:16 final size:16
Alignment explanation
Indices: 31323600--31323634 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31323590 ACTTAGGTTT
*
31323600 AAACTGGACCTAGTCG
1 AAACCGGACCTAGTCG
*
31323616 AAACCGGACCTATTCG
1 AAACCGGACCTAGTCG
31323632 AAA
1 AAA
31323635 GGAACAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (16 bp):
AAACCGGACCTAGTCG
Found at i:31324489 original size:25 final size:26
Alignment explanation
Indices: 31324425--31324501 Score: 93
Period size: 25 Copynumber: 2.9 Consensus size: 26
31324415 CATCCCGACC
** *
31324425 CACAGCTCGTGTGAGCAGACCAAATTT
1 CACAGCTCGTGTGAGCA-ATTATATTT
*
31324452 CACAGCTCATGTGAGCAATTATATTT
1 CACAGCTCGTGTGAGCAATTATATTT
31324478 -ACAGCTCGTGTGAGCAATTTATAT
1 CACAGCTCGTGTGAGCAA-TTATAT
31324502 CCAGTGTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 16 0.36
26 12 0.27
27 16 0.36
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAATTATATTT
Found at i:31329672 original size:14 final size:15
Alignment explanation
Indices: 31329646--31329674 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31329636 ATTGAGTAAA
31329646 TTAATTAAATTCATT
1 TTAATTAAATTCATT
31329661 TTAATT-AATTCATT
1 TTAATTAAATTCATT
31329675 AACTAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATTAAATTCATT
Found at i:31343076 original size:39 final size:39
Alignment explanation
Indices: 31343025--31343157 Score: 194
Period size: 39 Copynumber: 3.4 Consensus size: 39
31343015 TCGTAGATAA
* *
31343025 CTGTTGTACTTCGGTACCCGTGTTTGCACATACGTGCCC
1 CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
* * *
31343064 CTATTGTTCTTCGATACCCCTGTTTGTACATACGTGCCC
1 CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
* *
31343103 CTGTTGTTCTTCGGTACCCCTATTCGCACATACGTGCCC
1 CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
*
31343142 CTGTTGTGCTTCGGTA
1 CTGTTGTTCTTCGGTA
31343158 ACATTTATTA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.13, C:0.31, G:0.20, T:0.36
Consensus pattern (39 bp):
CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
Found at i:31343103 original size:20 final size:20
Alignment explanation
Indices: 31343045--31343146 Score: 59
Period size: 20 Copynumber: 5.2 Consensus size: 20
31343035 TCGGTACCCG
*
31343045 TGTTTGCACATACGTGCCCC
1 TGTTTGTACATACGTGCCCC
* * * *
31343065 T-ATTGTTC-TTCGATACCCC
1 TGTTTGTACATACG-TGCCCC
31343084 TGTTTGTACATACGTGCCCC
1 TGTTTGTACATACGTGCCCC
* * *
31343104 TG-TTGTTC-TTCGGTACCCC
1 TGTTTGTACATAC-GTGCCCC
* * *
31343123 TATTCGCACATACGTGCCCC
1 TGTTTGTACATACGTGCCCC
31343143 TGTT
1 TGTT
31343147 GTGCTTCGGT
Statistics
Matches: 57, Mismatches: 19, Indels: 12
0.65 0.22 0.14
Matches are distributed among these distances:
18 5 0.09
19 22 0.39
20 25 0.44
21 5 0.09
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (20 bp):
TGTTTGTACATACGTGCCCC
Found at i:31343122 original size:19 final size:19
Alignment explanation
Indices: 31343061--31343123 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
31343051 CACATACGTG
* *
31343061 CCCCTATTGTTCTTCGATA
1 CCCCTGTTGTTCTTCGGTA
* * *
31343080 CCCCTGTTTGTACATAC-GTG
1 CCCCTG-TTGTTC-TTCGGTA
31343100 CCCCTGTTGTTCTTCGGTA
1 CCCCTGTTGTTCTTCGGTA
31343119 CCCCT
1 CCCCT
31343124 ATTCGCACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 2 0.06
19 17 0.52
20 12 0.36
21 2 0.06
ACGTcount: A:0.11, C:0.35, G:0.16, T:0.38
Consensus pattern (19 bp):
CCCCTGTTGTTCTTCGGTA
Found at i:31348917 original size:50 final size:50
Alignment explanation
Indices: 31348842--31348936 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
31348832 CCAATCTTCC
31348842 GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTACAGATT
1 GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTACAGATT
*
31348892 GAATTCGATGGGAATAGATTAAAGGAGGATAGGATTTTGATTTAC
1 GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTAC
31348937 TGGAAAGAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (50 bp):
GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTACAGATT
Found at i:31354290 original size:21 final size:21
Alignment explanation
Indices: 31354249--31354294 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
31354239 GTGTCTTTGC
* *
31354249 CACATGACTGTGTGCCACTTT
1 CACATGACTGTATGACACTTT
31354270 CACATGACTGTATAGAC-CTTT
1 CACATGACTGTAT-GACACTTT
31354291 CACA
1 CACA
31354295 CGACCCAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (21 bp):
CACATGACTGTATGACACTTT
Found at i:31354861 original size:37 final size:37
Alignment explanation
Indices: 31354789--31354874 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
31354779 TCCACATTTT
* *
31354789 TGGTGTGTAGGATGGATGGGCCTATCATGGTCCTATG
1 TGGTGTGTAGGATGGATGGGCCTATCATAGCCCTATG
*
31354826 TGGTGT-TCAGGATGGATGGGCTTA-CTATAGCCCTATTG
1 TGGTGTGT-AGGATGGATGGGCCTATC-ATAGCCCTA-TG
*
31354864 TTGTGTGTAGG
1 TGGTGTGTAGG
31354875 GTGGTTGGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
36 2 0.05
37 28 0.68
38 10 0.24
39 1 0.02
ACGTcount: A:0.16, C:0.13, G:0.36, T:0.35
Consensus pattern (37 bp):
TGGTGTGTAGGATGGATGGGCCTATCATAGCCCTATG
Found at i:31361065 original size:16 final size:16
Alignment explanation
Indices: 31361044--31361077 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
31361034 AAAGGAAAAT
31361044 AAGTGAAATA-AAATGA
1 AAGTGAAA-AGAAATGA
31361060 AAGTGAAAAGAAATGA
1 AAGTGAAAAGAAATGA
31361076 AA
1 AA
31361078 CATTTCATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (16 bp):
AAGTGAAAAGAAATGA
Found at i:31362086 original size:15 final size:16
Alignment explanation
Indices: 31362059--31362092 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
31362049 ACAATTTTGT
31362059 AAATAAAATTAAATTA
1 AAATAAAATTAAATTA
31362075 AAATAAAA-TAAATTA
1 AAATAAAATTAAATTA
31362090 AAA
1 AAA
31362093 GAAATAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAAATTAAATTA
Found at i:31363116 original size:35 final size:35
Alignment explanation
Indices: 31363022--31363138 Score: 119
Period size: 35 Copynumber: 3.3 Consensus size: 35
31363012 ACTCTTTGTT
* *
31363022 TTGGTGTGTTTC-AATTGGACTAGCTATTATGAGCA
1 TTGGTGTGTTTCGGA-TGGACTAGCTCTTATGAGCA
** * * *
31363057 TTATTGTGTTTTGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGACTAGCTCTTATGAGCA
* *
31363092 TTGGTGTGTTTCGGATCGACTAGCTCTTACGAGCA
1 TTGGTGTGTTTCGGATGGACTAGCTCTTATGAGCA
*
31363127 TCTGATGTGTTT
1 T-TGGTGTGTTT
31363139 GGCTAGTTTG
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
35 55 0.85
36 10 0.15
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGACTAGCTCTTATGAGCA
Found at i:31377660 original size:11 final size:11
Alignment explanation
Indices: 31377632--31377663 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
31377622 GTGTTTAAAG
*
31377632 AATTTGATTTA
1 AATTTGGTTTA
31377643 AATTTGGTTTA
1 AATTTGGTTTA
31377654 AATTTGGTTT
1 AATTTGGTTT
31377664 TATATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
AATTTGGTTTA
Found at i:31377834 original size:16 final size:16
Alignment explanation
Indices: 31377815--31377845 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31377805 CGCTGTAATA
*
31377815 GAATAGAAGTGTAAAG
1 GAATAGAAGCGTAAAG
31377831 GAATAGAAGCGTAAA
1 GAATAGAAGCGTAAA
31377846 AGTAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.29, T:0.16
Consensus pattern (16 bp):
GAATAGAAGCGTAAAG
Found at i:31384409 original size:40 final size:40
Alignment explanation
Indices: 31384309--31384573 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
31384299 GCTCCTCGTT
* * * *
31384309 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
31384349 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31384388 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31384428 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
31384468 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
31384508 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31384549 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31384574 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31384533 original size:80 final size:80
Alignment explanation
Indices: 31384276--31384573 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
31384266 AAATCACGTA
* ** * * *
31384276 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
31384338 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
31384354 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
31384417 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
31384434 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
31384498 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
31384514 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
31384574 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:31384582 original size:41 final size:41
Alignment explanation
Indices: 31384505--31384582 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31384495 TTTGTATCTC
* * *
31384505 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31384546 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31384583 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31386261 original size:30 final size:30
Alignment explanation
Indices: 31386225--31386285 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31386215 CCTCAAAAAT
31386225 GAATGTCATTAAAAAGGTCCACTAGAGAAA
1 GAATGTCATTAAAAAGGTCCACTAGAGAAA
31386255 GAATGTCATTAAAAAGGTCCACTAGAGAAA
1 GAATGTCATTAAAAAGGTCCACTAGAGAAA
31386285 G
1 G
31386286 TATTATAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (30 bp):
GAATGTCATTAAAAAGGTCCACTAGAGAAA
Found at i:31388358 original size:41 final size:41
Alignment explanation
Indices: 31388306--31388399 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
31388296 GTGTTTTTCT
* * *
31388306 TATAAATGCCACAAAAGGTAAAGCAATAGCGGCGTTTCTCC
1 TATAAACGCCACAAAAGATAAAGCAATAGAGGCGTTTCTCC
* *
31388347 TATAAACGCCACCAAAGATAAAGCAATAGAGGCGTTTTTCC
1 TATAAACGCCACAAAAGATAAAGCAATAGAGGCGTTTCTCC
* *
31388388 CATAAACACCAC
1 TATAAACGCCAC
31388400 GAATTTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.20
Consensus pattern (41 bp):
TATAAACGCCACAAAAGATAAAGCAATAGAGGCGTTTCTCC
Found at i:31391203 original size:20 final size:20
Alignment explanation
Indices: 31391157--31391203 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
31391147 AGCTCGTTTC
*
31391157 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
31391177 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
31391197 CAGCTCA
1 CAGCTCA
31391204 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:31392891 original size:19 final size:19
Alignment explanation
Indices: 31392867--31392904 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31392857 CAAAAAGTAC
*
31392867 CGAATGTGGCACTAAACAG
1 CGAATGCGGCACTAAACAG
*
31392886 CGAATGCGGCACTATACAG
1 CGAATGCGGCACTAAACAG
31392905 TAAGATGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (19 bp):
CGAATGCGGCACTAAACAG
Found at i:31393368 original size:17 final size:18
Alignment explanation
Indices: 31393335--31393369 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31393325 GTGTGGTTCA
*
31393335 CTCGTGTGGGCCTACAAG
1 CTCGTGTGGGCCCACAAG
31393353 CTCGTGT-GGCCCACAAG
1 CTCGTGTGGGCCCACAAG
31393370 GCCCAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.20
Consensus pattern (18 bp):
CTCGTGTGGGCCCACAAG
Found at i:31395166 original size:14 final size:15
Alignment explanation
Indices: 31395137--31395169 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
31395127 TTCTATGAAC
31395137 TTTTTATATTTATAT
1 TTTTTATATTTATAT
*
31395152 TTTTTAT-TTTTTAT
1 TTTTTATATTTATAT
31395166 TTTT
1 TTTT
31395170 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTATATTTATAT
Found at i:31395701 original size:13 final size:13
Alignment explanation
Indices: 31395683--31395723 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
31395673 GGTTGACAAT
31395683 ATATTTGTAACTA
1 ATATTTGTAACTA
31395696 ATATTTGTAACTA
1 ATATTTGTAACTA
*
31395709 ACT-TTTGTAATTA
1 A-TATTTGTAACTA
31395722 AT
1 AT
31395724 TAGGTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (13 bp):
ATATTTGTAACTA
Found at i:31398902 original size:220 final size:220
Alignment explanation
Indices: 31398524--31399179 Score: 1149
Period size: 220 Copynumber: 3.0 Consensus size: 220
31398514 TGAACTATCC
* *
31398524 AATATAATGAAAGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACTAGATC-
1 AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
*
31398588 A-A-GTCTTGACTTTATGCAACTTGGAAAAGATC-TTTCACCTTCGTTCTTCACTATTATGTTGC
66 AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
*
31398650 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAATTTTCTATCGGTGGATGTAT
131 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
31398715 CTTATAGAGAGGTGCTAATTTATTT
196 CTTATAGAGAGGTGCTAATTTATTT
* *
31398740 AATATAACGAATGCTATTTGTGGAAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
1 AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
* *
31398805 AGACGACTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCATTCTTCACTATTATGTTGC
66 AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
*
31398870 ACTTACTAATCCATCTCCTTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
131 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
*
31398935 CTAATAGAGAGGTGCTAATTTATTT
196 CTTATAGAGAGGTGCTAATTTATTT
* *
31398960 AATATAATGAATGCTATTTGTGGCCAAGTTTTGATTGTTGAAGAACTTGAGAAACTACAAGATCA
1 AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
* *
31399025 AGCCGTTTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
66 AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
31399090 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
131 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
*
31399155 CTTATAGAGAGGTGCCAATTTATTT
196 CTTATAGAGAGGTGCTAATTTATTT
31399180 GCCAAGTTAT
Statistics
Matches: 415, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
216 60 0.14
217 1 0.00
218 1 0.00
219 28 0.07
220 325 0.78
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (220 bp):
AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
CTTATAGAGAGGTGCTAATTTATTT
Found at i:31402580 original size:43 final size:43
Alignment explanation
Indices: 31402532--31402674 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 43
31402522 ATGCCGCTAT
31402532 AGAACAT-AGTCTTTAGCGGTGC-CTTT-ATTACAAACACCACTAA
1 AGAACATGA-TCTTTAGC-G-GCACTTTCATTACAAACACCACTAA
* * * *
31402575 AGAACATGATCTTTAACGGCACTTTCATTACAAACAGCTCTAT
1 AGAACATGATCTTTAGCGGCACTTTCATTACAAACACCACTAA
* * * * * * *
31402618 AGAACATGATCTTTAGTGGCTCTTTTACTAAAAACGCCGCTAA
1 AGAACATGATCTTTAGCGGCACTTTCATTACAAACACCACTAA
31402661 AGAACATGATCTTT
1 AGAACATGATCTTT
31402675 TGCAGTGTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 5 0.06
43 75 0.90
44 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (43 bp):
AGAACATGATCTTTAGCGGCACTTTCATTACAAACACCACTAA
Found at i:31417810 original size:28 final size:30
Alignment explanation
Indices: 31417734--31417813 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
31417724 TTTCAATACA
* * * *
31417734 GTGTAGGCCTTAGCCCATTATAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAAAAGT
*
31417764 GTGTGAGCCTTAGCCCAATACAGTAAAAGT
1 GTGTGGGCCTTAGCCCAATACAGTAAAAGT
31417794 G-G-GGGCCTTAGCCCAATACA
1 GTGTGGGCCTTAGCCCAATACA
31417814 ATAATTAGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
28 17 0.39
29 1 0.02
30 26 0.59
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAAAAGT
Found at i:31417899 original size:26 final size:26
Alignment explanation
Indices: 31417870--31417946 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
31417860 ACACCAATAT
* *
31417870 CACAGCAAAGCTGCCAGTAATAGTGA
1 CACAGCAAAGCTGCCAGTAACAGTAA
*
31417896 CACATCAAAGCTGCCAGTAACAGTAA
1 CACAGCAAAGCTGCCAGTAACAGTAA
** *
31417922 TGCAGCAAAACTGCCAGTAACAGTA
1 CACAGCAAAGCTGCCAGTAACAGTA
31417947 TACGTGGCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (26 bp):
CACAGCAAAGCTGCCAGTAACAGTAA
Found at i:31418152 original size:27 final size:26
Alignment explanation
Indices: 31418122--31418563 Score: 360
Period size: 27 Copynumber: 16.4 Consensus size: 26
31418112 GGTATAACAG
* *
31418122 TCATTTTACCCTATGAGGATATTTCGA
1 TCATTTTACCCT-TAAGGGTATTTCGA
* * *
31418149 TCATTTTATCCTATGAGGGTATTTCGG
1 TCATTTTACCCT-TAAGGGTATTTCGA
* *
31418176 TCATTTTACCCTTCAAGGGTATTTTGG
1 TCATTTTACCCTT-AAGGGTATTTCGA
* * *
31418203 TTATTTTACCCTTCAAGGGCATTTTGA
1 TCATTTTACCCTT-AAGGGTATTTCGA
* *
31418230 TTATTTTACCCTTTGAGGGTATTTC-A
1 TCATTTTACCC-TTAAGGGTATTTCGA
* * *
31418256 GTTATTTTACCATTCAAGGGTATTT-TA
1 -TCATTTTACCCTT-AAGGGTATTTCGA
31418283 GTCATTTTACCCTTCAAGGGTATTTCGA
1 -TCATTTTACCCTT-AAGGGTATTTCGA
* * *
31418311 TCATTTTACCTTTCGAA-GGTATTTTGG
1 TCATTTTACCCTT--AAGGGTATTTCGA
*
31418338 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTT-AAGGGTATTTCGA
31418365 TCATTTTACCCTGTAAGGGTATTTC-A
1 TCATTTTACCCT-TAAGGGTATTTCGA
* *
31418391 CTCATTTTACCCTTCAGGGGTATTT-TA
1 -TCATTTTACCCTT-AAGGGTATTTCGA
* * *
31418418 GTTATTTTACCCTTCGAGGGTATTTCGG
1 -TCATTTTACCCTT-AAGGGTATTTCGA
* *
31418446 TTATTTTACCCTTTAAGGGTATTTCGG
1 TCATTTTACCC-TTAAGGGTATTTCGA
*
31418473 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTT-AAGGGTATTTCGA
31418500 TCATTTTACCCTTCAAGGGTATTTC-A
1 TCATTTTACCCTT-AAGGGTATTTCGA
* *
31418526 GTCATTTTATCCTTCAAGGCTATTTC-A
1 -TCATTTTACCCTT-AAGGGTATTTCGA
31418553 GTCA-TTTACCC
1 -TCATTTTACCC
31418564 ATGAATCGCA
Statistics
Matches: 357, Mismatches: 42, Indels: 33
0.83 0.10 0.08
Matches are distributed among these distances:
26 16 0.04
27 333 0.93
28 8 0.02
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTTAAGGGTATTTCGA
Found at i:31418185 original size:54 final size:53
Alignment explanation
Indices: 31418121--31418563 Score: 423
Period size: 54 Copynumber: 8.2 Consensus size: 53
31418111 GGGTATAACA
* * * *
31418121 GTCATTTTACCCTATGAGGATATTTCGATCATTTTATCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCT-TAAGGGTATTTCGATCATTTTACCCT-TCAAGGGTATTTCG
* * * * *
31418175 GTCATTTTACCCTTCAAGGGTATTTTGGTTATTTTACCCTTCAAGGGCATTTTG
1 GTCATTTTACCCTT-AAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCG
* * * * * **
31418229 ATTATTTTACCCTTTGAGGGTATTTC-AGTTATTTTACCATTCAAGGGTATTTTA
1 GTCATTTTACCC-TTAAGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCG
* *
31418283 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCTTTCGAA-GGTATTTTG
1 GTCATTTTACCCTT-AAGGGTATTTCGATCATTTTACCCTTC-AAGGGTATTTCG
* *
31418337 GTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTGT-AAGGGTATTTCA
1 GTCATTTTACCCTT-AAGGGTATTTCGATCATTTTACCCT-TCAAGGGTATTTCG
* * * * *
31418391 CTCATTTTACCCTTCAGGGGTATTT-TAGTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-AAGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCG
* * *
31418445 GTTATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCG
1 GTCATTTTACCC-TTAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCG
* * * *
31418499 ATCATTTTACCCTTCAAGGGTATTTC-AGTCATTTTATCCTTCAAGGCTATTTCA
1 GTCATTTTACCCTT-AAGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCG
31418553 GTCA-TTTACCC
1 GTCATTTTACCC
31418564 ATGAATCGCA
Statistics
Matches: 326, Mismatches: 48, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
53 17 0.05
54 301 0.92
55 8 0.02
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (53 bp):
GTCATTTTACCCTTAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCG
Found at i:31418247 original size:81 final size:81
Alignment explanation
Indices: 31418121--31418563 Score: 488
Period size: 81 Copynumber: 5.5 Consensus size: 81
31418111 GGGTATAACA
* * * *
31418121 GTCATTTTACCCTAT-GAGGATATTTCGATCATTTTATCCTATGAGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCT-TCAAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTAC
*
31418185 CCTTCAAGGGTATTTTG
65 CCTTCAAGGGTATTTCG
* * * * * *
31418202 GTTATTTTACCCTTCAAGGGCATTTTGATTATTTTACCCTTTGAGGGTATTTCAGTTATTTTACC
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
* **
31418267 ATTCAAGGGTATTTTA
66 CTTCAAGGGTATTTCG
* *
31418283 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTA-CCTTTCGAAGGTATTTTGGTCATTTTAC
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTT-GAGGGTATTTCGGTCATTTTAC
*
31418347 CCTTCAGGGGTATTTCG
65 CCTTCAAGGGTATTTCG
* * ** *
31418364 ATCATTTTACCCTGT-AAGGGTATTTC-ACTCATTTTACCC-TTCAGGGGTATTTTAGTTATTTT
1 GTCATTTTACCCT-TCAAGGGTATTTCGA-TCATTTTACCCTTTGA-GGGTATTTCGGTCATTTT
*
31418426 ACCCTTCGAGGGTATTTCG
63 ACCCTTCAAGGGTATTTCG
* * * * *
31418445 GTTATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCC-TTCAGGGGTATTTCGATCATTTTAC
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTTGA-GGGTATTTCGGTCATTTTAC
*
31418509 CCTTCAAGGGTATTTCA
65 CCTTCAAGGGTATTTCG
* *
31418526 GTCATTTTATCCTTCAAGGCTATTTC-AGTCA-TTTACCC
1 GTCATTTTACCCTTCAAGGGTATTTCGA-TCATTTTACCC
31418564 ATGAATCGCA
Statistics
Matches: 308, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
80 16 0.05
81 289 0.94
82 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
CTTCAAGGGTATTTCG
Found at i:31421886 original size:13 final size:14
Alignment explanation
Indices: 31421864--31421906 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
31421854 CAAGTCCTTC
*
31421864 ACAGATACAGATA-
1 ACAGAAACAGATAT
31421877 ACAGAAACAGATAT
1 ACAGAAACAGATAT
*
31421891 GCAG-AACAGATAT
1 ACAGAAACAGATAT
31421904 ACA
1 ACA
31421907 AAATCCCACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.14
Consensus pattern (14 bp):
ACAGAAACAGATAT
Found at i:31422365 original size:13 final size:13
Alignment explanation
Indices: 31422343--31422392 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
31422333 TGGGCCCATA
*
31422343 TGCCCTTGTGGCT
1 TGCCCGTGTGGCT
* *
31422356 TGCCCATGTGTCT
1 TGCCCGTGTGGCT
* *
31422369 AGCCCGTGTGGTT
1 TGCCCGTGTGGCT
31422382 TGCCCGTGTGG
1 TGCCCGTGTGG
31422393 GCCCACACGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.04, C:0.28, G:0.34, T:0.34
Consensus pattern (13 bp):
TGCCCGTGTGGCT
Found at i:31424895 original size:18 final size:18
Alignment explanation
Indices: 31424872--31424919 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
31424862 CTTTTCCCCC
*
31424872 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
31424890 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
31424908 TGCTTTC-TTTAT
1 TTCTTTCATTTAT
31424920 ATGCGAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.10, C:0.12, G:0.06, T:0.71
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:31426160 original size:15 final size:15
Alignment explanation
Indices: 31426140--31426186 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
31426130 TATAATATGT
31426140 ATTAATTATTTTACC
1 ATTAATTATTTTACC
*
31426155 ATTAA-TATGTATA-C
1 ATTAATTAT-TTTACC
31426169 -TTAATTATTTTACC
1 ATTAATTATTTTACC
31426183 ATTA
1 ATTA
31426187 GCATGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 11 0.42
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTAATTATTTTACC
Found at i:31426166 original size:25 final size:27
Alignment explanation
Indices: 31426132--31426186 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
31426122 ACAAAATTTA
31426132 TAATATG-TA-TTAATTATTTTACCAT
1 TAATATGATACTTAATTATTTTACCAT
31426157 TAATATGTATACTTAATTATTTTACCAT
1 TAATATG-ATACTTAATTATTTTACCAT
31426185 TA
1 TA
31426187 GCATGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 7 0.26
27 2 0.07
28 18 0.67
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATATGATACTTAATTATTTTACCAT
Found at i:31426178 original size:28 final size:27
Alignment explanation
Indices: 31426139--31426203 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 27
31426129 TTATAATATG
*
31426139 TATTAATTATTTTACCATTAATATGTA
1 TATTAATTATTTTACCATTAACATGTA
*
31426166 TACTTAATTATTTTACCATTAGCATGTA
1 TA-TTAATTATTTTACCATTAACATGTA
*
31426194 TATTTATTAT
1 TATTAATTAT
31426204 ATTATCTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (27 bp):
TATTAATTATTTTACCATTAACATGTA
Found at i:31427172 original size:27 final size:27
Alignment explanation
Indices: 31427142--31427196 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
31427132 AGTCATTACT
31427142 CAGACCGTTTGAAATTTGCTATGTCCC
1 CAGACCGTTTGAAATTTGCTATGTCCC
31427169 CAGACCGTTTGAAATTTGCTATGTCCC
1 CAGACCGTTTGAAATTTGCTATGTCCC
31427196 C
1 C
31427197 GCAATCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (27 bp):
CAGACCGTTTGAAATTTGCTATGTCCC
Found at i:31440379 original size:72 final size:74
Alignment explanation
Indices: 31440287--31440459 Score: 196
Period size: 72 Copynumber: 2.4 Consensus size: 74
31440277 AAAATTACAT
* * * * *
31440287 ATAAACAACTATTGATAAAACTAATTTAGT-A-AAAAATAAGTAGAATATAAATTCAATATCTAA
1 ATAAATAACTTTTAATAAAACTAATTTAGTCACAAAAATAAGTAGAACATAAATTCAATATCCAA
*
31440350 AGACCAAAC
66 AAACCAAAC
* *
31440359 ATAAATAACTTTTAATAAAACT-A--GAGTCCACATAAATAAGTAGAACATAAATTCAATATCCA
1 ATAAATAACTTTTAATAAAACTAATTTAGT-CACAAAAATAAGTAGAACATAAATTCAATATCCA
31440421 AAAACCAAAC
65 AAAACCAAAC
* *
31440431 ATAAATAAC-TATAGATAAAACTAGTTTAG
1 ATAAATAACTTTTA-ATAAAACTAATTTAG
31440460 CATTGTTGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
69 3 0.04
71 5 0.06
72 73 0.88
75 2 0.02
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (74 bp):
ATAAATAACTTTTAATAAAACTAATTTAGTCACAAAAATAAGTAGAACATAAATTCAATATCCAA
AAACCAAAC
Found at i:31440899 original size:18 final size:18
Alignment explanation
Indices: 31440876--31440923 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
31440866 TCCATCAATT
* *
31440876 TGAACATCATTTGAGATG
1 TGAACATCATTTAAAATG
31440894 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
31440912 TGAACATCATTT
1 TGAACATCATTT
31440924 CTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:31447689 original size:55 final size:55
Alignment explanation
Indices: 31447624--31447902 Score: 531
Period size: 55 Copynumber: 5.1 Consensus size: 55
31447614 TATTATTTAT
*
31447624 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAAGTAAAAATTCTGCC
1 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
31447679 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
1 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
31447734 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
1 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
31447789 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
1 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
* *
31447844 AAGGCCTATATACCAATGTCCAGATTCATTTAAAAACAAAACTAAAAATTTTGCC
1 AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
31447899 AAGG
1 AAGG
31447903 GCAAGACTTG
Statistics
Matches: 221, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 221 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.25
Consensus pattern (55 bp):
AAGGCCTATATACCAATGTCCAGATTCATTTAAGAACAAAACTAAAAATTCTGCC
Found at i:31449913 original size:40 final size:40
Alignment explanation
Indices: 31449876--31450100 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
31449866 GCTACTCGTT
* *
31449876 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
31449916 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
31449956 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
31449996 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
31450035 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31450076 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31450101 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31450060 original size:119 final size:120
Alignment explanation
Indices: 31449876--31450100 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
31449866 GCTACTCGTT
*
31449876 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
31449941 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
31449996 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
31450058 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
31450101 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31464140 original size:28 final size:28
Alignment explanation
Indices: 31464092--31464171 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
31464082 CCTATACAGT
* *
31464092 AACAGT-ACAGTGCGGGACTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
31464119 AACAGTAACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
* * *
31464147 TACAGCAATAGTGTGGGCCTTAGCC
1 AACAGTAACAGTGTGGGCCTTAGCC
31464172 TAATATAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 6 0.13
28 41 0.87
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (28 bp):
AACAGTAACAGTGTGGGCCTTAGCCCAA
Found at i:31464554 original size:27 final size:25
Alignment explanation
Indices: 31464524--31464803 Score: 222
Period size: 27 Copynumber: 10.4 Consensus size: 25
31464514 TTCATCACCT
31464524 AGGGTTATTTCAGTCATTTTACCCTTC
1 AGGG-TATTTC-GTCATTTTACCCTTC
31464551 AGGGTATTTCGATCATTTTACCCTTC
1 AGGGTATTTCG-TCATTTTACCCTTC
*
31464577 AGAGGTATTTCAGTCATTTTACCCTCC
1 AG-GGTATTTC-GTCATTTTACCCTTC
* *
31464604 GGGGGTATTTCGGTCATTTTACCCTCTA
1 -AGGGTATTTC-GTCATTTTACCCT-TC
** *
31464632 ACAGTATTTCGATCATTTTACCCTTTA
1 AGGGTATTTCG-TCATTTTACCC-TTC
*
31464659 AGGGTATTTCGATCATTTTACCCTCTG
1 AGGGTATTTCG-TCATTTTACCCT-TC
** *
31464686 AGGGTATTTCAGTCATTTTA-TTTTT
1 AGGGTATTTC-GTCATTTTACCCTTC
* *
31464711 AGGGGTATTTCGATCATTTTACCTTTTG
1 A-GGGTATTTCG-TCATTTTACC-CTTC
* *
31464739 GGGGTATTTTGGTCATTTTACCC-TC
1 AGGGTA-TTTCGTCATTTTACCCTTC
*
31464764 TAGGGGTATTTCGATCATTTTACCCTCC
1 -A-GGGTATTTCG-TCATTTTACCCTTC
31464792 AGGGGTATTTCG
1 A-GGGTATTTCG
31464804 GTCAGTTGCC
Statistics
Matches: 212, Mismatches: 23, Indels: 36
0.78 0.08 0.13
Matches are distributed among these distances:
25 5 0.02
26 46 0.22
27 149 0.70
28 12 0.06
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (25 bp):
AGGGTATTTCGTCATTTTACCCTTC
Found at i:31464626 original size:54 final size:54
Alignment explanation
Indices: 31464529--31464807 Score: 307
Period size: 54 Copynumber: 5.2 Consensus size: 54
31464519 CACCTAGGGT
*
31464529 TATTTCAGTCATTTTACCCTTCA-GGGTATTTCGATCATTTTACCCTTCAGAGG
1 TATTTCAGTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCAGAGG
*** * * *
31464582 TATTTCAGTCATTTTACCCTCCGGGGGTATTTCGGTCATTTTACCCTCTAACA-G
1 TATTTCAGTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCT-TCAGAGG
* *
31464636 TATTTC-GATCATTTTACCCTTTAAGGGTATTTCGATCATTTTACCC-TCTGAGGG
1 TATTTCAG-TCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCAGA-GG
** * ** *
31464690 TATTTCAGTCATTTTA-TTTTTAGGGGTATTTCGATCATTTTACCTTTTGGGGG
1 TATTTCAGTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCAGAGG
** * * *
31464743 TATTTTGGTCATTTTACCCTCTAGGGGTATTTCGATCATTTTACCCTCCAGGGG
1 TATTTCAGTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCAGAGG
*
31464797 TATTTCGGTCA
1 TATTTCAGTCA
31464808 GTTGCCCATG
Statistics
Matches: 188, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.01
53 63 0.34
54 119 0.63
55 4 0.02
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (54 bp):
TATTTCAGTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCAGAGG
Found at i:31464728 original size:107 final size:108
Alignment explanation
Indices: 31464529--31464807 Score: 325
Period size: 107 Copynumber: 2.6 Consensus size: 108
31464519 CACCTAGGGT
*
31464529 TATTTC-AGTCATTTTACCC-TTCAGGGTATTTCGATCATTTTACCCT-TCAGAGGTATTTCAGT
1 TATTTCGA-TCATTTTACCCTTTAAGGGTATTTCGATCATTTTACCCTCTCAG-GGTATTTCAGT
* *
31464591 CATTTTACCCTCCGGGGGTATTTCGGTCATTTTACCCTCTAACAG
64 CATTTTACCCTCCAGGGGTATTTCGATCATTTTACCCTCTAACAG
*
31464636 TATTTCGATCATTTTACCCTTTAAGGGTATTTCGATCATTTTACCCTCTGAGGGTATTTCAGTCA
1 TATTTCGATCATTTTACCCTTTAAGGGTATTTCGATCATTTTACCCTCTCAGGGTATTTCAGTCA
** ** * * ****
31464701 TTTTA-TTTTTAGGGGTATTTCGATCATTTTACCTTTTGGGGG
66 TTTTACCCTCCAGGGGTATTTCGATCATTTTACCCTCTAACAG
* * * * *
31464743 TATTTTGGTCATTTTACCCTCTAGGGGTATTTCGATCATTTTACCCTC-CAGGGGTATTTCGGTC
1 TATTTCGATCATTTTACCCTTTAAGGGTATTTCGATCATTTTACCCTCTCA-GGGTATTTCAGTC
31464807 A
65 A
31464808 GTTGCCCATG
Statistics
Matches: 148, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.01
107 99 0.67
108 45 0.30
109 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (108 bp):
TATTTCGATCATTTTACCCTTTAAGGGTATTTCGATCATTTTACCCTCTCAGGGTATTTCAGTCA
TTTTACCCTCCAGGGGTATTTCGATCATTTTACCCTCTAACAG
Found at i:31464755 original size:80 final size:80
Alignment explanation
Indices: 31464524--31464803 Score: 314
Period size: 80 Copynumber: 3.5 Consensus size: 80
31464514 TTCATCACCT
* * * *
31464524 AGGGTTATTTCAGTCATTTTACCCTTCAGGGTATTTCGATCATTTTACCCTTCAGAGGTATTTCA
1 AGGG-TATTTCAGTCATTTTACCCTTTAGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTCG
*
31464589 GTCATTTTACCCTCCG
65 GTCATTTTACCCTCTG
* * * ** *
31464605 GGGGTATTTCGGTCATTTTACCCTCTAACAGTATTTCGATCATTTTACCCTTTAAGGGTATTTCG
1 AGGGTATTTCAGTCATTTTACCCT-TTAGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTCG
*
31464670 ATCATTTTACCCTCTG
65 GTCATTTTACCCTCTG
** * * *
31464686 AGGGTATTTCAGTCATTTTA-TTTTTAGGGGTATTTCGATCATTTTACCTTTTGGGGGTATTTTG
1 AGGGTATTTCAGTCATTTTACCCTTTA-GGGTATTTCGATCATTTTACCCTTTAGGGGTATTTCG
31464750 GTCATTTTACCCTCT-
65 GTCATTTTACCCTCTG
**
31464765 AGGGGTATTTC-GATCATTTTACCCTCCAGGGGTATTTCG
1 A-GGGTATTTCAG-TCATTTTACCCTTTA-GGGTATTTCG
31464804 GTCAGTTGCC
Statistics
Matches: 167, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
79 4 0.02
80 82 0.49
81 81 0.49
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (80 bp):
AGGGTATTTCAGTCATTTTACCCTTTAGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTCGG
TCATTTTACCCTCTG
Found at i:31468705 original size:40 final size:40
Alignment explanation
Indices: 31468634--31468872 Score: 316
Period size: 40 Copynumber: 6.0 Consensus size: 40
31468624 CGATTAAAGT
**
31468634 TACCGAAGTGTAAACAGGGGCACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* * *
31468674 TACCAAAGTACAAACAGGGGCACGTAGGTGCAATCAGGGA
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* *
31468714 TACCGAAGTACAAATAGGGGCACGTATGTGCAATCAAGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* * * * *
31468754 TACCGATGTAAAAACAAGGGCACATATGTGCAATCAAGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
*
31468794 TACCGAAGTACAAACAGGGGCATGTATGTGCAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* * * *
31468834 CACTGAAGTACAAACAAGGGTACGTATGTGCAATTCAGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAA-TCAGG
31468873 TATAATTAAC
Statistics
Matches: 172, Mismatches: 26, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 167 0.97
41 5 0.03
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
Found at i:31472931 original size:15 final size:15
Alignment explanation
Indices: 31472911--31472947 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
31472901 ACTATACTAA
31472911 AAATAATAAG-AAAGT
1 AAATAA-AAGAAAAGT
31472926 AAATAAAAGAAAAGT
1 AAATAAAAGAAAAGT
31472941 AAATAAA
1 AAATAAA
31472948 TAAAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (15 bp):
AAATAAAAGAAAAGT
Found at i:31478561 original size:28 final size:28
Alignment explanation
Indices: 31478521--31478578 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
31478511 TTGTTGCGTA
31478521 TGCTCCACAATTCGTGTGAGTAGCATCG
1 TGCTCCACAATTCGTGTGAGTAGCATCG
31478549 TGCTCCACAATTCGTGTGAGTAGCATCG
1 TGCTCCACAATTCGTGTGAGTAGCATCG
31478577 TG
1 TG
31478579 TAGCTTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (28 bp):
TGCTCCACAATTCGTGTGAGTAGCATCG
Found at i:31480522 original size:965 final size:965
Alignment explanation
Indices: 31478653--31480583 Score: 3862
Period size: 965 Copynumber: 2.0 Consensus size: 965
31478643 TAAAGGCACA
31478653 CTTTGTGTGATCTTTCCCATGTATCCGATGTAATTCTAGATGGTTCAATGGGTATGAAAAGGAAC
1 CTTTGTGTGATCTTTCCCATGTATCCGATGTAATTCTAGATGGTTCAATGGGTATGAAAAGGAAC
31478718 AAAATGCTAAGTGTTCAAATGGAATGTATCATGAACTTATGAAAAGGAATTATGAACTAAATGAT
66 AAAATGCTAAGTGTTCAAATGGAATGTATCATGAACTTATGAAAAGGAATTATGAACTAAATGAT
31478783 GAGTTTATATGTGCAAATCTACTTGTCTATGGAGGAATTCATTTGAACCATGTACAAGACTACTA
131 GAGTTTATATGTGCAAATCTACTTGTCTATGGAGGAATTCATTTGAACCATGTACAAGACTACTA
31478848 ACTTGTGATTTTAATGATGTTGTATAGGCTAGGGCACGGGTTGTGCCCCTGGTTCGAAAGTTACG
196 ACTTGTGATTTTAATGATGTTGTATAGGCTAGGGCACGGGTTGTGCCCCTGGTTCGAAAGTTACG
31478913 CGGCTTGGCCACACGACCGTGTGACCATTGTTTTCAAATTTTGTAACTTTTTCCTAAAATTTCCA
261 CGGCTTGGCCACACGACCGTGTGACCATTGTTTTCAAATTTTGTAACTTTTTCCTAAAATTTCCA
31478978 AATTGTTTCAAATTAATTTTGAATTGCTTCTAAGCTATTTCTAGGTCCTCGAAGGCTCGATTTAG
326 AATTGTTTCAAATTAATTTTGAATTGCTTCTAAGCTATTTCTAGGTCCTCGAAGGCTCGATTTAG
31479043 GGACAAAGTGCATGTGAATGGATGGATTATGATATGATTAGTCTATTTGAATGTTATGATTTTTA
391 GGACAAAGTGCATGTGAATGGATGGATTATGATATGATTAGTCTATTTGAATGTTATGATTTTTA
31479108 AATATTTTCAATTATTCGGTAATGCTCTGTAACCCTAATCTGGCAACAAAGATGAGTTAGGGGTG
456 AATATTTTCAATTATTCGGTAATGCTCTGTAACCCTAATCTGGCAACAAAGATGAGTTAGGGGTG
31479173 TTACATGTCCCTTATCTATTTTCCCATCAACCTCGATGGGAATGGTATCTATTACCAACTCGATA
521 TTACATGTCCCTTATCTATTTTCCCATCAACCTCGATGGGAATGGTATCTATTACCAACTCGATA
31479238 ATCTACCGTAATTTGATATGAAAAATTAGGCTTCCCCAGTACACTTGAGGAGCTTGTTTTCAAGC
586 ATCTACCGTAATTTGATATGAAAAATTAGGCTTCCCCAGTACACTTGAGGAGCTTGTTTTCAAGC
31479303 ATATTAGAGTATTTTCTATAAAAATTTAAGTTTTAAGGTTTTGATTTTATAATTGTAAATGCCTC
651 ATATTAGAGTATTTTCTATAAAAATTTAAGTTTTAAGGTTTTGATTTTATAATTGTAAATGCCTC
31479368 TATTTTCTTATTTTCTAAGACTCAAATTGGCCAATAGTGCCATTTAGGGCCCTAACATATAATTG
716 TATTTTCTTATTTTCTAAGACTCAAATTGGCCAATAGTGCCATTTAGGGCCCTAACATATAATTG
31479433 AGTGTGGTAGGGACACGTTGGAGGCCAAAACCAAGCAAGAACATCACTAAACGAGAAGGTACCGC
781 AGTGTGGTAGGGACACGTTGGAGGCCAAAACCAAGCAAGAACATCACTAAACGAGAAGGTACCGC
31479498 GATATCCTACCTTTGGAATAACGATACCTCCAACAGGCCCCAAGGATAGAGACCACACACAATGG
846 GATATCCTACCTTTGGAATAACGATACCTCCAACAGGCCCCAAGGATAGAGACCACACACAATGG
31479563 TATCACGATATCTACATGCTTTGGCAATCTCCCATTTCAAGACTATTGACGATGC
911 TATCACGATATCTACATGCTTTGGCAATCTCCCATTTCAAGACTATTGACGATGC
31479618 CTTTGTGTGATCTTTCCCATGTATCCGATGTAATTCTAGATGGTTCAATGGGTATGAAAAGGAAC
1 CTTTGTGTGATCTTTCCCATGTATCCGATGTAATTCTAGATGGTTCAATGGGTATGAAAAGGAAC
31479683 AAAATGCTAAGTGTTCAAATGGAATGTATCATGAACTTATGAAAAGGAATTATGAACTAAATGAT
66 AAAATGCTAAGTGTTCAAATGGAATGTATCATGAACTTATGAAAAGGAATTATGAACTAAATGAT
31479748 GAGTTTATATGTGCAAATCTACTTGTCTATGGAGGAATTCATTTGAACCATGTACAAGACTACTA
131 GAGTTTATATGTGCAAATCTACTTGTCTATGGAGGAATTCATTTGAACCATGTACAAGACTACTA
31479813 ACTTGTGATTTTAATGATGTTGTATAGGCTAGGGCACGGGTTGTGCCCCTGGTTCGAAAGTTACG
196 ACTTGTGATTTTAATGATGTTGTATAGGCTAGGGCACGGGTTGTGCCCCTGGTTCGAAAGTTACG
31479878 CGGCTTGGCCACACGACCGTGTGACCATTGTTTTCAAATTTTGTAACTTTTTCCTAAAATTTCCA
261 CGGCTTGGCCACACGACCGTGTGACCATTGTTTTCAAATTTTGTAACTTTTTCCTAAAATTTCCA
31479943 AATTGTTTCAAATTAATTTTGAATTGCTTCTAAGCTATTTCTAGGTCCTCGAAGGCTCGATTTAG
326 AATTGTTTCAAATTAATTTTGAATTGCTTCTAAGCTATTTCTAGGTCCTCGAAGGCTCGATTTAG
31480008 GGACAAAGTGCATGTGAATGGATGGATTATGATATGATTAGTCTATTTGAATGTTATGATTTTTA
391 GGACAAAGTGCATGTGAATGGATGGATTATGATATGATTAGTCTATTTGAATGTTATGATTTTTA
31480073 AATATTTTCAATTATTCGGTAATGCTCTGTAACCCTAATCTGGCAACAAAGATGAGTTAGGGGTG
456 AATATTTTCAATTATTCGGTAATGCTCTGTAACCCTAATCTGGCAACAAAGATGAGTTAGGGGTG
31480138 TTACATGTCCCTTATCTATTTTCCCATCAACCTCGATGGGAATGGTATCTATTACCAACTCGATA
521 TTACATGTCCCTTATCTATTTTCCCATCAACCTCGATGGGAATGGTATCTATTACCAACTCGATA
31480203 ATCTACCGTAATTTGATATGAAAAATTAGGCTTCCCCAGTACACTTGAGGAGCTTGTTTTCAAGC
586 ATCTACCGTAATTTGATATGAAAAATTAGGCTTCCCCAGTACACTTGAGGAGCTTGTTTTCAAGC
31480268 ATATTAGAGTATTTTCTATAAAAATTTAAGTTTTAAGGTTTTGATTTTATAATTGTAAATGCCTC
651 ATATTAGAGTATTTTCTATAAAAATTTAAGTTTTAAGGTTTTGATTTTATAATTGTAAATGCCTC
31480333 TATTTTCTTATTTTCTAAGACTCAAATTGGCCAATAGTGCCATTTAGGGCCCTAACATATAATTG
716 TATTTTCTTATTTTCTAAGACTCAAATTGGCCAATAGTGCCATTTAGGGCCCTAACATATAATTG
31480398 AGTGTGGTAGGGACACGTTGGAGGCCAAAACCAAGCAAGAACATCACTAAACGAGAAGGTACCGC
781 AGTGTGGTAGGGACACGTTGGAGGCCAAAACCAAGCAAGAACATCACTAAACGAGAAGGTACCGC
31480463 GATATCCTACCTTTGGAATAACGATACCTCCAACAGGCCCCAAGGATAGAGACCACACACAATGG
846 GATATCCTACCTTTGGAATAACGATACCTCCAACAGGCCCCAAGGATAGAGACCACACACAATGG
31480528 TATCACGATATCTACATGCTTTGGCAATCTCCCATTTCAAGACTATTGACGATGC
911 TATCACGATATCTACATGCTTTGGCAATCTCCCATTTCAAGACTATTGACGATGC
31480583 C
1 C
31480584 CCAACATCCA
Statistics
Matches: 966, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
965 966 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (965 bp):
CTTTGTGTGATCTTTCCCATGTATCCGATGTAATTCTAGATGGTTCAATGGGTATGAAAAGGAAC
AAAATGCTAAGTGTTCAAATGGAATGTATCATGAACTTATGAAAAGGAATTATGAACTAAATGAT
GAGTTTATATGTGCAAATCTACTTGTCTATGGAGGAATTCATTTGAACCATGTACAAGACTACTA
ACTTGTGATTTTAATGATGTTGTATAGGCTAGGGCACGGGTTGTGCCCCTGGTTCGAAAGTTACG
CGGCTTGGCCACACGACCGTGTGACCATTGTTTTCAAATTTTGTAACTTTTTCCTAAAATTTCCA
AATTGTTTCAAATTAATTTTGAATTGCTTCTAAGCTATTTCTAGGTCCTCGAAGGCTCGATTTAG
GGACAAAGTGCATGTGAATGGATGGATTATGATATGATTAGTCTATTTGAATGTTATGATTTTTA
AATATTTTCAATTATTCGGTAATGCTCTGTAACCCTAATCTGGCAACAAAGATGAGTTAGGGGTG
TTACATGTCCCTTATCTATTTTCCCATCAACCTCGATGGGAATGGTATCTATTACCAACTCGATA
ATCTACCGTAATTTGATATGAAAAATTAGGCTTCCCCAGTACACTTGAGGAGCTTGTTTTCAAGC
ATATTAGAGTATTTTCTATAAAAATTTAAGTTTTAAGGTTTTGATTTTATAATTGTAAATGCCTC
TATTTTCTTATTTTCTAAGACTCAAATTGGCCAATAGTGCCATTTAGGGCCCTAACATATAATTG
AGTGTGGTAGGGACACGTTGGAGGCCAAAACCAAGCAAGAACATCACTAAACGAGAAGGTACCGC
GATATCCTACCTTTGGAATAACGATACCTCCAACAGGCCCCAAGGATAGAGACCACACACAATGG
TATCACGATATCTACATGCTTTGGCAATCTCCCATTTCAAGACTATTGACGATGC
Found at i:31483786 original size:64 final size:64
Alignment explanation
Indices: 31483685--31483811 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
31483675 TGAACGACTG
31483685 TGTACACTTGCACTAACCGCATTACAATAAGTTCGAAAGAATTTAGTGAGCTCTAGTTATAAAT
1 TGTACACTTGCACTAACCGCATTACAATAAGTTCGAAAGAATTTAGTGAGCTCTAGTTATAAAT
* *
31483749 TGTACACTTGGACTAACCGCGTTACAATAAGTTCGAAAGAATTTAGTGAGCTCTAGTTATAAA
1 TGTACACTTGCACTAACCGCATTACAATAAGTTCGAAAGAATTTAGTGAGCTCTAGTTATAAA
31483812 AATGCTCAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (64 bp):
TGTACACTTGCACTAACCGCATTACAATAAGTTCGAAAGAATTTAGTGAGCTCTAGTTATAAAT
Found at i:31484609 original size:48 final size:47
Alignment explanation
Indices: 31484507--31484630 Score: 131
Period size: 48 Copynumber: 2.6 Consensus size: 47
31484497 TAACGCTAAG
* ** * * *
31484507 CTGATTAGAAACTAACATGCCCTACCAGTGGCCCCTCATCTCCGCTAA
1 CTGATTAG-CACTAACATGCCCTACCAGTGGCCCAACATATACGCCAA
31484555 CTTGATTAGCACTAACATGCCCTACCAGTGGCCCAACATATACGCCAA
1 C-TGATTAGCACTAACATGCCCTACCAGTGGCCCAACATATACGCCAA
* **
31484603 TCTGATTACCAACTAACATATCCTACCA
1 -CTGATTAGC-ACTAACATGCCCTACCA
31484631 ATGGTCCGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 41 0.64
49 23 0.36
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.23
Consensus pattern (47 bp):
CTGATTAGCACTAACATGCCCTACCAGTGGCCCAACATATACGCCAA
Found at i:31508407 original size:29 final size:29
Alignment explanation
Indices: 31508331--31508408 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
31508321 TTGGAGTCTC
* **
31508331 GCCACAAAGGCTTCCACTTAATAGAGATA
1 GCCAAAAAGGCTTCCTTTTAATAGAGATA
* * *
31508360 GCCATAAGGGCTTCTTTTTAATAGAGATA
1 GCCAAAAAGGCTTCCTTTTAATAGAGATA
31508389 GCCAAAAAGGC-TCACTTTTA
1 GCCAAAAAGGCTTC-CTTTTA
31508409 TGAAAATTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 2 0.05
29 38 0.95
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (29 bp):
GCCAAAAAGGCTTCCTTTTAATAGAGATA
Found at i:31512567 original size:12 final size:12
Alignment explanation
Indices: 31512552--31512577 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31512542 TTTCCCAAAG
31512552 TTCTTCCTTTAT
1 TTCTTCCTTTAT
31512564 TTCTTCCTTTAT
1 TTCTTCCTTTAT
31512576 TT
1 TT
31512578 TTTTAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCTTCCTTTAT
Found at i:31515866 original size:105 final size:105
Alignment explanation
Indices: 31515684--31515890 Score: 396
Period size: 105 Copynumber: 2.0 Consensus size: 105
31515674 CCAATTCCTG
*
31515684 AAGCTGCAGAGGAGCCAGCTCAAACTCATACTGCCAGAGTCGAATCAGTGAATTTGGGAACCATT
1 AAGCTACAGAGGAGCCAGCTCAAACTCATACTGCCAGAGTCGAATCAGTGAATTTGGGAACCATT
31515749 GCTAATAAAGGGGAAACTATTGCTGAGGAGCCTAAACCTA
66 GCTAATAAAGGGGAAACTATTGCTGAGGAGCCTAAACCTA
*
31515789 AAGCTACAGAGGAGCCAGCTCAAACTCCTACTGCCAGAGTCGAATCAGTGAATTTGGGAACCATT
1 AAGCTACAGAGGAGCCAGCTCAAACTCATACTGCCAGAGTCGAATCAGTGAATTTGGGAACCATT
31515854 GCTAATAAAGGGGAAACTATTGCTGAGGAGCCTAAAC
66 GCTAATAAAGGGGAAACTATTGCTGAGGAGCCTAAAC
31515891 AGATGACATC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (105 bp):
AAGCTACAGAGGAGCCAGCTCAAACTCATACTGCCAGAGTCGAATCAGTGAATTTGGGAACCATT
GCTAATAAAGGGGAAACTATTGCTGAGGAGCCTAAACCTA
Found at i:31525019 original size:183 final size:183
Alignment explanation
Indices: 31524711--31525081 Score: 715
Period size: 183 Copynumber: 2.0 Consensus size: 183
31524701 AATATCACCA
31524711 TTTTTATCTCATCTATAAAAGCATAAAATTTAAATGACTCTAACCAACAAAAGTTTCCATAATTC
1 TTTTTATCTCATCTATAAAAGCATAAAATTTAAATGACTCTAACCAACAAAAGTTTCCATAATTC
*
31524776 CATCCTAGAAAAACTAAAAAATGCAAAATTAAAAAATTCACCCCAAAGCATACTTTGGATCTTCA
66 CATCCTAGAAAAACTAAAAAATACAAAATTAAAAAATTCACCCCAAAGCATACTTTGGATCTTCA
*
31524841 ATTTTGTCACCACCGACTTCTACTGTGATACCACTTCACGTTTTCGTTGTCAT
131 ATTTTGTCACCACCGACTTCTACTGCGATACCACTTCACGTTTTCGTTGTCAT
31524894 TTTTTATCTCATCTATAAAAGCATAAAATTTAAATGACTCTAACCAACAAAAGTTTCCATAATTC
1 TTTTTATCTCATCTATAAAAGCATAAAATTTAAATGACTCTAACCAACAAAAGTTTCCATAATTC
31524959 CATCCTAGAAAAACTAAAAAATACAAAATTAAAAAATTCACCCCAAAGCATACTTTGGATCTTCA
66 CATCCTAGAAAAACTAAAAAATACAAAATTAAAAAATTCACCCCAAAGCATACTTTGGATCTTCA
*
31525024 ATTTTGTCACCACGGACTTCTACTGCGATACCACTTCACGTTTTCGTTGTCAT
131 ATTTTGTCACCACCGACTTCTACTGCGATACCACTTCACGTTTTCGTTGTCAT
31525077 TTTTT
1 TTTTT
31525082 TGACCATTTT
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 185 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (183 bp):
TTTTTATCTCATCTATAAAAGCATAAAATTTAAATGACTCTAACCAACAAAAGTTTCCATAATTC
CATCCTAGAAAAACTAAAAAATACAAAATTAAAAAATTCACCCCAAAGCATACTTTGGATCTTCA
ATTTTGTCACCACCGACTTCTACTGCGATACCACTTCACGTTTTCGTTGTCAT
Found at i:31526588 original size:59 final size:57
Alignment explanation
Indices: 31526491--31526670 Score: 202
Period size: 57 Copynumber: 3.1 Consensus size: 57
31526481 ATTTTTTAGG
* * * *
31526491 TCATTATCAATTTGGAGAAAATCACATTCATTTCCAAATGATTCCATTTCACTATTT
1 TCATTTTCATTTTGGTGAAAACCACATTCATTTCCAAATGATTCCATTTCACTATTT
* * * *
31526548 TCATTTTCATTTTTTGGTGAAAACCACATTTATTTTCAAATGACTCCATTT-ATCCATTT
1 TCATTTTCA--TTTTGGTGAAAACCACATTCATTTCCAAATGATTCCATTTCA-CTATTT
* * * *
31526607 TCATTTTGATTTT-GTAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCTATTT
1 TCATTTTCATTTTGGT-GAAAACCACATTCATTTCCAAATGATTCCATTTCACTATTT
31526664 TCATTTT
1 TCATTTT
31526671 GGAGAAAACC
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
56 2 0.02
57 52 0.51
58 1 0.01
59 47 0.46
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (57 bp):
TCATTTTCATTTTGGTGAAAACCACATTCATTTCCAAATGATTCCATTTCACTATTT
Found at i:31526647 original size:57 final size:58
Alignment explanation
Indices: 31526501--31526671 Score: 195
Period size: 59 Copynumber: 2.9 Consensus size: 58
31526491 TCATTATCAA
* * * *
31526501 TTTGGAGAAAATCACATTCATTTCCAAATGATTCCATTTCA-CTATTTTCATTTTCATTT
1 TTTGGTGAAAACCACAATCATTTCCAAATGATTCCATTT-ATCTATTTTCATTTTGA-TT
* * * * *
31526560 TTTGGTGAAAACCACATTTATTTTCAAATGACTCCATTTATCCATTTTCATTTTGA-T
1 TTTGGTGAAAACCACAATCATTTCCAAATGATTCCATTTATCTATTTTCATTTTGATT
* *
31526617 TTT-GTAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCTATTTTCATTTTG
1 TTTGGT-GAAAACCACAATCATTTCCAAATGATTCCATTTATCTATTTTCATTTTG
31526672 GAGAAAACCA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 2 0.02
57 46 0.48
58 1 0.01
59 47 0.49
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.46
Consensus pattern (58 bp):
TTTGGTGAAAACCACAATCATTTCCAAATGATTCCATTTATCTATTTTCATTTTGATT
Found at i:31526677 original size:51 final size:52
Alignment explanation
Indices: 31526600--31526718 Score: 165
Period size: 51 Copynumber: 2.3 Consensus size: 52
31526590 ACTCCATTTA
* * *
31526600 TCCATTT-TC-ATTTTGATTTTGTAGAAAACCATAATCATTTCCAAATGA-T
1 TCCATTTCTCTATTTTCATTTTGGAGAAAACCATAATAATTTCCAAATGATT
*
31526649 TCCATTTCTCTATTTTCATTTTGGAGAAAACCATAATAATTTTCAAATGATT
1 TCCATTTCTCTATTTTCATTTTGGAGAAAACCATAATAATTTCCAAATGATT
31526701 TCTCA-TTCTCTATTTTCA
1 TC-CATTTCTCTATTTTCA
31526719 CCATTTCTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
49 7 0.11
50 2 0.03
51 35 0.56
52 16 0.26
53 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (52 bp):
TCCATTTCTCTATTTTCATTTTGGAGAAAACCATAATAATTTCCAAATGATT
Found at i:31531390 original size:21 final size:20
Alignment explanation
Indices: 31531359--31531415 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 20
31531349 TTCTCAATCC
31531359 AATATACATTTCAATATCATAAT
1 AATAT-CATTTCAAT-TCA-AAT
31531382 AAT-TCATTT-AATTCAAAT
1 AATATCATTTCAATTCAAAT
*
31531400 CATATCATTTGCAATT
1 AATATCATTT-CAATT
31531416 TCCATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 5 0.17
19 9 0.30
20 3 0.10
21 9 0.30
22 1 0.03
23 3 0.10
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (20 bp):
AATATCATTTCAATTCAAAT
Found at i:31535267 original size:45 final size:45
Alignment explanation
Indices: 31535203--31535296 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
31535193 AATAGATACT
* *
31535203 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
31535248 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
31535293 CGGT
1 CGGT
31535297 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:31535360 original size:51 final size:50
Alignment explanation
Indices: 31535293--31535488 Score: 250
Period size: 51 Copynumber: 3.9 Consensus size: 50
31535283 CAATGATGTT
* * *
31535293 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
31535344 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
31535395 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
31535445 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
31535489 CACTTTCACT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 77 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:31535477 original size:101 final size:101
Alignment explanation
Indices: 31535300--31535484 Score: 318
Period size: 101 Copynumber: 1.8 Consensus size: 101
31535290 GTTCGGTTCA
*
31535300 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
31535365 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* *
31535402 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
31535466 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
31535485 CCATCACTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.52
102 34 0.43
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:31537751 original size:53 final size:53
Alignment explanation
Indices: 31537693--31537797 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
31537683 CATAAGAATG
*
31537693 TATATAAGTGATTTCAGGTCTATTTTAACTTATAATAAGTTGAATTTGGAAAA
1 TATATAAGTGATTTCAGGTCTATTTTAACTTATAACAAGTTGAATTTGGAAAA
*
31537746 TATATAAGTGATTTCAGGTTTATTTTAACTTATAACAAGTTGAATTTGGAAA
1 TATATAAGTGATTTCAGGTCTATTTTAACTTATAACAAGTTGAATTTGGAAA
31537798 TAACAAATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (53 bp):
TATATAAGTGATTTCAGGTCTATTTTAACTTATAACAAGTTGAATTTGGAAAA
Found at i:31543473 original size:50 final size:50
Alignment explanation
Indices: 31543362--31543608 Score: 232
Period size: 50 Copynumber: 4.8 Consensus size: 50
31543352 ATTTGGGTAA
*
31543362 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGGGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TATG
* * *
31543418 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
* **
31543468 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGACACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGATATG
* * * * *
31543518 AGA-ACTCCCATGTAAGACCATATATGGGATATGGAATTGGCA--GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATG
* * * * *
31543567 AAACATCTCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31543609 TGTTATTATC
Statistics
Matches: 162, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 76 0.47
51 5 0.03
55 1 0.01
56 40 0.25
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
Found at i:31549193 original size:7 final size:7
Alignment explanation
Indices: 31549181--31549205 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31549171 CTTTTAGATT
31549181 AAAAAAG
1 AAAAAAG
31549188 AAAAAAG
1 AAAAAAG
31549195 AAAAAAG
1 AAAAAAG
31549202 AAAA
1 AAAA
31549206 GAAAAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:31550908 original size:5 final size:5
Alignment explanation
Indices: 31550898--31550923 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31550888 TGAGCATTCG
31550898 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
31550924 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:31551713 original size:30 final size:31
Alignment explanation
Indices: 31551674--31551733 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
31551664 GGAGGTGGGA
*
31551674 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
31551705 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
31551734 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:31551961 original size:9 final size:9
Alignment explanation
Indices: 31551947--31551971 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31551937 TATAGTTTGA
31551947 TATTCGAAT
1 TATTCGAAT
31551956 TATTCGAAT
1 TATTCGAAT
31551965 TATTCGA
1 TATTCGA
31551972 GTTAAACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31552142 original size:9 final size:9
Alignment explanation
Indices: 31552128--31552164 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
31552118 TATAGTTTGA
31552128 TATTCGAAT
1 TATTCGAAT
31552137 TATTCGAAT
1 TATTCGAAT
*
31552146 TATTCGAGT
1 TATTCGAAT
31552155 TATTCGAAT
1 TATTCGAAT
31552164 T
1 T
31552165 CGAACTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31552206 original size:181 final size:181
Alignment explanation
Indices: 31551902--31552263 Score: 690
Period size: 181 Copynumber: 2.0 Consensus size: 181
31551892 GAAAAGTAAA
31551902 AAGGTTTGGGAGTTTGAGGTAAAAATGTAAAATATTATAGTTTGATATTCGAATTATTCGAATTA
1 AAGGTTTGGGAGTTTGAGGTAAAAATGTAAAATATTATAGTTTGATATTCGAATTATTCGAATTA
31551967 TTCGAGTTAAACGAATTCGAACTCGAAATTCGAAAAAAATTCGAGTTGATTCGAATAACTCGATT
66 TTCGAGTTAAACGAATTCGAACTCGAAATTCGAAAAAAATTCGAGTTGATTCGAATAACTCGATT
31552032 CATTTAACTCGAAATTCGAATTTT-TTTTTCATTTTTTTGAGTCGAATCGAG
131 CATTTAACTCGAAATTCGAATTTTATTTTT-ATTTTTTTGAGTCGAATCGAG
31552083 AAGGTTTGGGAGTTTGAGGTAAAAATGTAAAATATTATAGTTTGATATTCGAATTATTCGAATTA
1 AAGGTTTGGGAGTTTGAGGTAAAAATGTAAAATATTATAGTTTGATATTCGAATTATTCGAATTA
**
31552148 TTCGAGTTATTCGAATTCGAACTCGAAATTCGAAAAAAATTCGAGTTGATTCGAATAACTCGATT
66 TTCGAGTTAAACGAATTCGAACTCGAAATTCGAAAAAAATTCGAGTTGATTCGAATAACTCGATT
31552213 CATTTAACTCGAAATTCGAATTTTATTTTTATTTTTTTGAGTCGAATCGAG
131 CATTTAACTCGAAATTCGAATTTTATTTTTATTTTTTTGAGTCGAATCGAG
31552264 TTTTGCTCAC
Statistics
Matches: 178, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
181 173 0.97
182 5 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (181 bp):
AAGGTTTGGGAGTTTGAGGTAAAAATGTAAAATATTATAGTTTGATATTCGAATTATTCGAATTA
TTCGAGTTAAACGAATTCGAACTCGAAATTCGAAAAAAATTCGAGTTGATTCGAATAACTCGATT
CATTTAACTCGAAATTCGAATTTTATTTTTATTTTTTTGAGTCGAATCGAG
Found at i:31554577 original size:21 final size:21
Alignment explanation
Indices: 31554526--31554575 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
31554516 ATTATTACTC
31554526 TAATAAA-ATAGTAAAATATT
1 TAATAAATATAGTAAAATATT
31554546 TAATAAATATAGT-AAAT-TT
1 TAATAAATATAGTAAAATATT
*
31554565 TAATTAATATA
1 TAATAAATATA
31554576 TAAGCTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.43
20 11 0.39
21 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
TAATAAATATAGTAAAATATT
Found at i:31554968 original size:8 final size:9
Alignment explanation
Indices: 31554954--31554978 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31554944 TCTTTCTCTT
31554954 TTTTTTTTC
1 TTTTTTTTC
31554963 TTTTTTTTC
1 TTTTTTTTC
31554972 TTTTTTT
1 TTTTTTT
31554979 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:31554973 original size:20 final size:21
Alignment explanation
Indices: 31554950--31554988 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31554940 CTCTTCTTTC
*
31554950 TCTTTTTTT-TTTCTTTTTTT
1 TCTTTTTTTATTTATTTTTTT
31554970 TCTTTTTTTATTTATTTTT
1 TCTTTTTTTATTTATTTTT
31554989 GTGCACCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (21 bp):
TCTTTTTTTATTTATTTTTTT
Found at i:31555502 original size:38 final size:38
Alignment explanation
Indices: 31555416--31555489 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
31555406 ATCTATTACT
* * *
31555416 AATGTTAAAGTGAATACATGTTAAGCATGTTGATTGCC
1 AATGTTGAATTGAATACATGTTAAGCATGTTGACTGCC
*
31555454 AATGTTGAATTGAATACATGTTAAGCATGTTTACTG
1 AATGTTGAATTGAATACATGTTAAGCATGTTGACTG
31555490 GTAGTGTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (38 bp):
AATGTTGAATTGAATACATGTTAAGCATGTTGACTGCC
Found at i:31557513 original size:31 final size:31
Alignment explanation
Indices: 31557478--31557536 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
31557468 TATTATTTTA
31557478 ATATTT-TAATATTAAATTTAATTTAATACTT
1 ATATTTATAATATTAAA-TTAATTTAATACTT
* **
31557509 ATATTTATAGTATTTTATTAATTTAATA
1 ATATTTATAATATTAAATTAATTTAATA
31557537 TTAAAGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
ATATTTATAATATTAAATTAATTTAATACTT
Found at i:31560410 original size:21 final size:21
Alignment explanation
Indices: 31560371--31560411 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31560361 TAGTTTTAGG
*
31560371 TTTAGTTTTCTCTATATTTTC
1 TTTAGTTTTCTCTACATTTTC
*
31560392 TTTAGTTTTCTCTGCATTTT
1 TTTAGTTTTCTCTACATTTT
31560412 TCTAGGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTAGTTTTCTCTACATTTTC
Found at i:31560726 original size:31 final size:31
Alignment explanation
Indices: 31560689--31560747 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
31560679 TATTTGAGTT
*
31560689 AATTAAGTTATTTGGA-TCAACTCGAATAAAA
1 AATTAAGTT-TTTCGATTCAACTCGAATAAAA
*
31560720 AATTAAGTTTTTCGATTTAACTCGAATA
1 AATTAAGTTTTTCGATTCAACTCGAATA
31560748 TGAATTACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (31 bp):
AATTAAGTTTTTCGATTCAACTCGAATAAAA
Found at i:31562729 original size:26 final size:26
Alignment explanation
Indices: 31562693--31562744 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
31562683 TCTCATCAAG
31562693 TTCTTCACACTCTATCTGATTTGCAT
1 TTCTTCACACTCTATCTGATTTGCAT
*
31562719 TTCTTCACACTCTGTCTGATTTGCAT
1 TTCTTCACACTCTATCTGATTTGCAT
31562745 ACATGGGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.27, G:0.10, T:0.46
Consensus pattern (26 bp):
TTCTTCACACTCTATCTGATTTGCAT
Found at i:31572253 original size:3 final size:3
Alignment explanation
Indices: 31572247--31572276 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
31572237 ACCTAATAAT
31572247 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
31572277 CCAACTTCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:31574086 original size:13 final size:13
Alignment explanation
Indices: 31574068--31574094 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31574058 AGTTCTTTAT
31574068 TGCTTTTGAGAAA
1 TGCTTTTGAGAAA
31574081 TGCTTTTGAGAAA
1 TGCTTTTGAGAAA
31574094 T
1 T
31574095 TTGAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAA
Found at i:31574706 original size:22 final size:21
Alignment explanation
Indices: 31574681--31574724 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
31574671 AAGCATATGA
*
31574681 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
31574703 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
31574724 A
1 A
31574725 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:31581062 original size:15 final size:15
Alignment explanation
Indices: 31581042--31581072 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31581032 AAATTTCATT
*
31581042 TGATTTTTGCATAGA
1 TGATTTTTACATAGA
31581057 TGATTTTTACATAGA
1 TGATTTTTACATAGA
31581072 T
1 T
31581073 AGTACATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (15 bp):
TGATTTTTACATAGA
Found at i:31582609 original size:30 final size:30
Alignment explanation
Indices: 31582575--31582634 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
31582565 AGTGCAAAGT
31582575 AAGGCCAAGGTTTCCATGTCGCTATCCACA
1 AAGGCCAAGGTTTCCATGTCGCTATCCACA
31582605 AAGGCCAAGGTTTCCATGTCGCTATCCACA
1 AAGGCCAAGGTTTCCATGTCGCTATCCACA
31582635 CTGCACCGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (30 bp):
AAGGCCAAGGTTTCCATGTCGCTATCCACA
Found at i:31583288 original size:93 final size:94
Alignment explanation
Indices: 31583126--31583311 Score: 347
Period size: 93 Copynumber: 2.0 Consensus size: 94
31583116 GTAGTTAAAG
*
31583126 TAAAATCCATATCATTATTATTCATAAAAAAAAGTATCATTTTTGTTCCCAAATTTTTAATTTAA
1 TAAAATCCATATCATTATTATTCATAAAAAAAAGTATCATTTTAGTTCCCAAATTTTTAATTTAA
31583191 TTTAATTTTAATCACTCAACCATCACCTA
66 TTTAATTTTAATCACTCAACCATCACCTA
*
31583220 TAAAATCCATATCTTTATTATTCAT-AAAAAAAGTATCATTTTAGTTCCCAAATTTTTAATTTAA
1 TAAAATCCATATCATTATTATTCATAAAAAAAAGTATCATTTTAGTTCCCAAATTTTTAATTTAA
31583284 TTTAATTTTAATCACTCAACCATCACCT
66 TTTAATTTTAATCACTCAACCATCACCT
31583312 GAAACCAAAA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 66 0.73
94 24 0.27
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (94 bp):
TAAAATCCATATCATTATTATTCATAAAAAAAAGTATCATTTTAGTTCCCAAATTTTTAATTTAA
TTTAATTTTAATCACTCAACCATCACCTA
Found at i:31588032 original size:69 final size:69
Alignment explanation
Indices: 31587921--31588060 Score: 210
Period size: 69 Copynumber: 2.0 Consensus size: 69
31587911 AAAACACATA
* * *
31587921 TAATTGTGCTCAATACAATGAAAGGCCCGAATCCCGATCATAATACATATAAGGGGAAACACACT
1 TAATTGTGCCCAATACAATGAAAGACCCGAATCCCGATCATAATACATATAAGGGGAAACACACC
31587986 CTAT
66 CTAT
* * *
31587990 TAATTGTGCCCAATACAATGAGAGACCCGAATCCTC-ATCATAATACATATGAGGGGAATCACAC
1 TAATTGTGCCCAATACAATGAAAGACCCGAATCC-CGATCATAATACATATAAGGGGAAACACAC
31588054 CCTAT
65 CCTAT
31588059 TA
1 TA
31588061 GCCCTTCTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 63 0.98
70 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (69 bp):
TAATTGTGCCCAATACAATGAAAGACCCGAATCCCGATCATAATACATATAAGGGGAAACACACC
CTAT
Found at i:31592472 original size:23 final size:22
Alignment explanation
Indices: 31592446--31592493 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
31592436 ATGGGTTACA
*
31592446 TTATATGTATCAATTTTAAAATT
1 TTATATGTATC-ATTCTAAAATT
* *
31592469 TTATATTTATCATTCTAACATT
1 TTATATGTATCATTCTAAAATT
31592491 TTA
1 TTA
31592494 GTAATACTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATATGTATCATTCTAAAATT
Found at i:31609324 original size:23 final size:23
Alignment explanation
Indices: 31609294--31609415 Score: 113
Period size: 23 Copynumber: 5.3 Consensus size: 23
31609284 ATAAATGCCA
31609294 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
* *
31609317 CACTGATACGTAG-TCATAGCTAC
1 CACTGATATGTAGCTGA-AGCTAC
* * *
31609340 CACTGAAATGTAGCCGAAGCTAT
1 CACTGATATGTAGCTGAAGCTAC
* *
31609363 CATTGATATGTAG-TCATAGCTAC
1 CACTGATATGTAGCTGA-AGCTAC
* * * *
31609386 CATTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
31609409 CACTGAT
1 CACTGAT
31609416 CAATAACACT
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
22 3 0.04
23 71 0.93
24 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (23 bp):
CACTGATATGTAGCTGAAGCTAC
Found at i:31609361 original size:46 final size:46
Alignment explanation
Indices: 31609294--31609415 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
31609284 ATAAATGCCA
* *
31609294 CACTGATATGTAGCTGAAGCTACCACTGATACGTAGTCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGTCATAGCTAC
* * *
31609340 CACTGAAATGTAGCCGAAGCTATCATTGATATGTAGTCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGTCATAGCTAC
* *
31609386 CATTAAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
31609416 CAATAACACT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGTCATAGCTAC
Found at i:31614821 original size:3 final size:3
Alignment explanation
Indices: 31614813--31614841 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31614803 TAGTTTGGCT
31614813 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
31614842 AGAATGGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:31620336 original size:23 final size:23
Alignment explanation
Indices: 31620310--31620431 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
31620300 ATGAGTGCCA
31620310 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
31620333 CACTGATACGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
31620356 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
31620379 CACTGATATGGAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
31620402 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
31620425 CACTGAT
1 CACTGAT
31620432 CAATAACACT
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
22 1 0.01
23 84 0.99
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:31620377 original size:46 final size:46
Alignment explanation
Indices: 31620310--31620431 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
31620300 ATGAGTGCCA
* * *
31620310 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGGAGCCGTAGCTAC
*
31620356 CACTGAAATGTAGCCGAAGCTACCACTGATATGGAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGGAGCCGTAGCTAC
*
31620402 CACTGAATTGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
31620432 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGGAGCCGTAGCTAC
Found at i:31620683 original size:18 final size:17
Alignment explanation
Indices: 31620657--31620695 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
31620647 ATTTTCCTTC
31620657 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
31620674 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
31620692 CACA
1 CACA
31620696 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:31626717 original size:18 final size:18
Alignment explanation
Indices: 31626668--31626706 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
31626658 ATCAAAATTT
31626668 TAAAGATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
31626686 TAAAGATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
31626704 TAA
1 TAA
31626707 TTATAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (18 bp):
TAAAGATCAAATTTAAAC
Found at i:31626773 original size:29 final size:29
Alignment explanation
Indices: 31626740--31626803 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
31626730 AAATAATTTG
* *
31626740 ATCTTTACCCAACTAATTTCAAATCTTCA
1 ATCTTTACCCAACCAACTTCAAATCTTCA
* * *
31626769 ATCTTTATCTAGCCAACTTCAAATCTTCA
1 ATCTTTACCCAACCAACTTCAAATCTTCA
31626798 ATCTTT
1 ATCTTT
31626804 CAATCTAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.41
Consensus pattern (29 bp):
ATCTTTACCCAACCAACTTCAAATCTTCA
Found at i:31627345 original size:19 final size:20
Alignment explanation
Indices: 31627321--31627365 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
31627311 CAACTTGACG
31627321 TTTTTTATA-TTTTTTATTA
1 TTTTTTATACTTTTTTATTA
* *
31627340 TTTTTT-TACTTTTTTGTTG
1 TTTTTTATACTTTTTTATTA
31627359 TTTTTTA
1 TTTTTTA
31627366 CGAATTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTTTATACTTTTTTATTA
Found at i:31632073 original size:18 final size:18
Alignment explanation
Indices: 31632047--31632081 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31632037 ATCAAAATTT
31632047 TAAAAATCAAATTTAAAC
1 TAAAAATCAAATTTAAAC
* *
31632065 TAAAGATCAACTTTAAA
1 TAAAAATCAAATTTAAA
31632082 GTAATTACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:31632152 original size:29 final size:29
Alignment explanation
Indices: 31632119--31632182 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
31632109 AAATAATTTG
* *
31632119 ATCTTTATCCAACCAATTTCAAATCTTCA
1 ATCTTTATCCAACCAACTCCAAATCTTCA
* *
31632148 ATCTTTATCTAGCCAACTCCAAATCTTCA
1 ATCTTTATCCAACCAACTCCAAATCTTCA
31632177 ATCTTT
1 ATCTTT
31632183 CAATTTAGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.02, T:0.39
Consensus pattern (29 bp):
ATCTTTATCCAACCAACTCCAAATCTTCA
Found at i:31632455 original size:19 final size:20
Alignment explanation
Indices: 31632431--31632479 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
31632421 TCTTTTTTAT
*
31632431 TATATATTTAAAAAGA-AAG
1 TATATATTTAAAAAGACAAA
31632450 TATATA-TTAAAAAGACAAA
1 TATATATTTAAAAAGACAAA
31632469 TATAT-TTTAAA
1 TATATATTTAAA
31632480 TTTTTTGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (20 bp):
TATATATTTAAAAAGACAAA
Found at i:31632471 original size:17 final size:17
Alignment explanation
Indices: 31632432--31632474 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
31632422 CTTTTTTATT
31632432 ATATATTTAAAAAGAAAG
1 ATATA-TTAAAAAGAAAG
31632450 TATATATTAAAAAGACAA-
1 -ATATATTAAAAAGA-AAG
31632468 ATATATT
1 ATATATT
31632475 TTAAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 9 0.39
19 7 0.30
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
ATATATTAAAAAGAAAG
Found at i:31633511 original size:30 final size:31
Alignment explanation
Indices: 31633449--31633518 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
31633439 TCCAAACAAT
* * * *
31633449 AACAACAAAATAGTAACAAAATAGTGAAAAA
1 AACAAGAAAATAGCAACAAAACAATGAAAAA
31633480 AACAAGAAAATAGCAACAAAACAAT-AAAAA
1 AACAAGAAAATAGCAACAAAACAATGAAAAA
31633510 AACAAGAAA
1 AACAAGAAA
31633519 GCAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 14 0.40
31 21 0.60
ACGTcount: A:0.71, C:0.11, G:0.09, T:0.09
Consensus pattern (31 bp):
AACAAGAAAATAGCAACAAAACAATGAAAAA
Found at i:31638026 original size:132 final size:132
Alignment explanation
Indices: 31637855--31638104 Score: 378
Period size: 132 Copynumber: 1.9 Consensus size: 132
31637845 TGTAAAAATT
* *
31637855 AAAGGTTAAAATTGTCATTACACCTAATATTAAACCCTATACCTTCTCATTTCTTTCCCTTTAAA
1 AAAGGTTAAAATTGTCATAACACCTAATATTAAACCCTATACCTTCTCATTTCTTCCCCTTTAAA
* * *
31637920 TATCTGGCTATCTTAACCG-TTGTCCGCCGCCTTCTCCTGTTCATCTATTCTATTGATAGAAGAG
66 TATCTGGCTATCTCAACCGATAG-ACGCCGCCTTCTCCTGTTCATCTATTCTATTGATAGAAGAG
31637984 GTA
130 GTA
* *
31637987 AAAGGTTAAATTTGTCATAATACCTAA-ACTTAAACCCTATACCTTCTCATTTCTTCCCCTTTAA
1 AAAGGTTAAAATTGTCATAACACCTAATA-TTAAACCCTATACCTTCTCATTTCTTCCCCTTTAA
* * *
31638051 ATATCTGGCTCTCTCAACCGATAGACGCCGCCTTCTCTTGTTCATCTCTTCTAT
65 ATATCTGGCTATCTCAACCGATAGACGCCGCCTTCTCCTGTTCATCTATTCTAT
31638105 CTATTTTTCT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
131 1 0.01
132 103 0.97
133 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (132 bp):
AAAGGTTAAAATTGTCATAACACCTAATATTAAACCCTATACCTTCTCATTTCTTCCCCTTTAAA
TATCTGGCTATCTCAACCGATAGACGCCGCCTTCTCCTGTTCATCTATTCTATTGATAGAAGAGG
TA
Found at i:31639210 original size:7 final size:7
Alignment explanation
Indices: 31639198--31639246 Score: 64
Period size: 7 Copynumber: 6.7 Consensus size: 7
31639188 AAATTATTTT
31639198 AAAAATA
1 AAAAATA
31639205 AAAAAT-
1 AAAAATA
31639211 AAAAATA
1 AAAAATA
31639218 AAAATATTTA
1 AAAA-A--TA
31639228 AAAAATA
1 AAAAATA
31639235 AAAAATA
1 AAAAATA
31639242 AAAAA
1 AAAAA
31639247 AAATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.16
7 24 0.63
8 1 0.03
9 1 0.03
10 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:31639248 original size:28 final size:29
Alignment explanation
Indices: 31639185--31639255 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 29
31639175 AATAAACATT
* *
31639185 AAAAAATTATTTTAAAAATAAAAAATAAA
1 AAAAAAATATTTAAAAAATAAAAAATAAA
31639214 AATAAAAATATTTAAAAAATAAAAAAT-AA
1 AA-AAAAATATTTAAAAAATAAAAAATAAA
31639243 AAAAAAATATTTA
1 AAAAAAATATTTA
31639256 TTATATTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 11 0.28
29 6 0.15
30 22 0.56
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAAATATTTAAAAAATAAAAAATAAA
Found at i:31640304 original size:15 final size:15
Alignment explanation
Indices: 31640253--31640307 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
31640243 TAAAATTTTA
31640253 ATAAATA-AAA-AAT
1 ATAAATATAAATAAT
*
31640266 ATAATTATTAAAT-AT
1 ATAAATA-TAAATAAT
31640281 -TAAATTATAAATAAT
1 ATAAA-TATAAATAAT
31640296 ATAAATATAAAT
1 ATAAATATAAAT
31640308 TTTTAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 6 0.18
14 8 0.24
15 16 0.47
16 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAAATATAAATAAT
Found at i:31641141 original size:57 final size:57
Alignment explanation
Indices: 31641023--31641150 Score: 134
Period size: 57 Copynumber: 2.2 Consensus size: 57
31641013 ATCATTAATA
* * * * *
31641023 AAAATAATAAATAATTTAATTATATTTTAACATAATTATTATTAAATATAATTTAAT
1 AAAATAATATATAATTTAATAAAATTTTAACATAACTATTATTAAATATAATTTAAG
* * *
31641080 AAAATAATATATAATTTAATAAAATTTTTAATATAACTATT-TT-TATATGAATTTACG
1 AAAATAATATATAATTTAATAAAA-TTTTAACATAACTATTATTAAATAT-AATTTAAG
*
31641137 AAAATCATAATATA
1 AAAATAAT-ATATA
31641151 TAATACTATA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
56 4 0.07
57 36 0.61
58 19 0.32
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (57 bp):
AAAATAATATATAATTTAATAAAATTTTAACATAACTATTATTAAATATAATTTAAG
Found at i:31650342 original size:7 final size:7
Alignment explanation
Indices: 31650330--31650374 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
31650320 ATTACTAGTA
31650330 GATATTT
1 GATATTT
31650337 GATATTT
1 GATATTT
31650344 GATATTT
1 GATATTT
31650351 GATATTT
1 GATATTT
31650358 GATATTT
1 GATATTT
31650365 GATATTT
1 GATATTT
31650372 GAT
1 GAT
31650375 TAAGTTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GATATTT
Found at i:31654949 original size:41 final size:41
Alignment explanation
Indices: 31654894--31654997 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
31654884 GTGTAAACAT
* *
31654894 GGCACGTATGTGCAATTCAGGGGTACCAAAGTATAATCAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
* * * *
31654935 GGCATGTATGTGCAATTTAAGGGTACCGAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
*
31654976 GGCACATATGTGCAATTCAGGG
1 GGCACGTATGTGCAATTCAGGG
31654998 AATAATTAAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
Found at i:31662013 original size:35 final size:35
Alignment explanation
Indices: 31661967--31662036 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
31661957 ATGCCCAAAG
31661967 ATCAATCATGAGATTATTGTAATAACATACTTGAT
1 ATCAATCATGAGATTATTGTAATAACATACTTGAT
31662002 ATCAATCATGAGATTATTGTAATAACATACTTGAT
1 ATCAATCATGAGATTATTGTAATAACATACTTGAT
31662037 TTATCATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (35 bp):
ATCAATCATGAGATTATTGTAATAACATACTTGAT
Found at i:31662250 original size:21 final size:21
Alignment explanation
Indices: 31662224--31662267 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
31662214 GATTGATGAT
31662224 AAAGAGTTGTCATTGATATGG
1 AAAGAGTTGTCATTGATATGG
31662245 AAAGAGTTGTCATTGATATGG
1 AAAGAGTTGTCATTGATATGG
31662266 AA
1 AA
31662268 TGTCATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (21 bp):
AAAGAGTTGTCATTGATATGG
Found at i:31667905 original size:18 final size:18
Alignment explanation
Indices: 31667870--31667914 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
31667860 GCAATAAGTG
*
31667870 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
31667888 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
31667906 AC-TTTTGAA
1 ACGTTTTGAA
31667915 TACAAATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 17 0.68
19 1 0.04
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:31668645 original size:18 final size:18
Alignment explanation
Indices: 31668615--31668650 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
31668605 AATTACAGAC
31668615 TTTTGAACTTTTAATTTT
1 TTTTGAACTTTTAATTTT
31668633 TTTTAGAAC-TTTAATTTT
1 TTTT-GAACTTTTAATTTT
31668651 GATTTTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTGAACTTTTAATTTT
Found at i:31671104 original size:20 final size:20
Alignment explanation
Indices: 31671079--31671123 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31671069 AAGGAGTCAA
*
31671079 TAAATCAATTTGATTAAAAT
1 TAAATCAACTTGATTAAAAT
*
31671099 TAAATCAACTTGATTGAAAT
1 TAAATCAACTTGATTAAAAT
*
31671119 AAAAT
1 TAAAT
31671124 AAAATAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (20 bp):
TAAATCAACTTGATTAAAAT
Found at i:31678648 original size:20 final size:19
Alignment explanation
Indices: 31678623--31678662 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
31678613 ATTACAAAAT
31678623 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
31678643 AATTCAAAATAATTTTAAA
1 AATTCAAAATAATTTTAAA
31678662 A
1 A
31678663 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Done.